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Cobalt in PDB 6jjf: Crystal Structure of A Two-Quartet Dna Mixed-Parallel/Antiparallel G- Quadruplex

Protein crystallography data

The structure of Crystal Structure of A Two-Quartet Dna Mixed-Parallel/Antiparallel G- Quadruplex, PDB code: 6jjf was solved by Y.S.Zhang, K.Ei Omari, R.Duman, A.Wagner, G.N.Parkinson, D.G.Wei, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 23.80 / 1.47
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 45.370, 47.600, 37.730, 90.00, 110.02, 90.00
R / Rfree (%) 19.2 / 19.9

Other elements in 6jjf:

The structure of Crystal Structure of A Two-Quartet Dna Mixed-Parallel/Antiparallel G- Quadruplex also contains other interesting chemical elements:

Potassium (K) 3 atoms
Sodium (Na) 1 atom

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Crystal Structure of A Two-Quartet Dna Mixed-Parallel/Antiparallel G- Quadruplex (pdb code 6jjf). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 3 binding sites of Cobalt where determined in the Crystal Structure of A Two-Quartet Dna Mixed-Parallel/Antiparallel G- Quadruplex, PDB code: 6jjf:
Jump to Cobalt binding site number: 1; 2; 3;

Cobalt binding site 1 out of 3 in 6jjf

Go back to Cobalt Binding Sites List in 6jjf
Cobalt binding site 1 out of 3 in the Crystal Structure of A Two-Quartet Dna Mixed-Parallel/Antiparallel G- Quadruplex


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Crystal Structure of A Two-Quartet Dna Mixed-Parallel/Antiparallel G- Quadruplex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co104

b:66.8
occ:1.00
CO A:NCO104 0.0 66.8 1.0
N6 A:NCO104 1.9 62.2 1.0
N3 A:NCO104 2.0 62.0 1.0
N1 A:NCO104 2.0 61.4 1.0
N5 A:NCO104 2.0 62.7 1.0
N2 A:NCO104 2.0 51.6 1.0
N4 A:NCO104 2.0 49.8 1.0
O A:HOH203 4.1 50.5 1.0
OP2 A:DA14 4.1 30.0 0.5
O A:HOH204 4.2 31.1 1.0
OP2 A:DA14 4.2 27.5 0.5

Cobalt binding site 2 out of 3 in 6jjf

Go back to Cobalt Binding Sites List in 6jjf
Cobalt binding site 2 out of 3 in the Crystal Structure of A Two-Quartet Dna Mixed-Parallel/Antiparallel G- Quadruplex


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Crystal Structure of A Two-Quartet Dna Mixed-Parallel/Antiparallel G- Quadruplex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co105

b:46.9
occ:1.00
CO A:NCO105 0.0 46.9 1.0
N4 A:NCO105 1.9 38.6 1.0
N5 A:NCO105 2.0 54.0 1.0
N6 A:NCO105 2.0 43.1 1.0
N2 A:NCO105 2.0 43.5 1.0
N3 A:NCO105 2.0 46.3 1.0
N1 A:NCO105 2.0 35.0 1.0
O A:HOH218 3.9 58.5 1.0
O A:HOH214 4.0 55.7 1.0
O A:HOH209 4.4 32.4 1.0

Cobalt binding site 3 out of 3 in 6jjf

Go back to Cobalt Binding Sites List in 6jjf
Cobalt binding site 3 out of 3 in the Crystal Structure of A Two-Quartet Dna Mixed-Parallel/Antiparallel G- Quadruplex


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Crystal Structure of A Two-Quartet Dna Mixed-Parallel/Antiparallel G- Quadruplex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co101

b:70.5
occ:1.00
CO B:NCO101 0.0 70.5 1.0
N4 B:NCO101 2.0 69.7 1.0
N5 B:NCO101 2.0 53.0 1.0
N2 B:NCO101 2.0 69.4 1.0
N3 B:NCO101 2.0 59.3 1.0
N6 B:NCO101 2.0 59.8 1.0
N1 B:NCO101 2.0 63.6 1.0
OP2 B:DA14 3.8 30.4 0.5
O B:HOH205 4.0 42.5 1.0
OP2 B:DA14 4.1 29.1 0.5
O B:HOH203 4.3 31.1 1.0

Reference:

Y.S.Zhang, K.Ei Omari, R.Duman, A.Wagner, G.N.Parkinson, D.G.Wei. Crystal Structure of A Two-Quartet Dna Mixed-Parallel/Antiparallel G-Quadruplex To Be Published.
Page generated: Sun Dec 13 10:50:23 2020

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